Matthew Schechter of anvi'o


Microbiologist interested in combining comparative genomics and environmental metagenomics to identify genetic determinants of fitness in microbial populations in the human gut and ocean microbiome.


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Program contributions

anvi-analyze-synteny anvi-export-locus anvi-run-hmms anvi-run-workflow anvi-script-filter-hmm-hits-table

Resource contributions

Technical write-ups

Solutions or discussions regarding matters that are typically more technical than scientific.

Extract loci from genomes and metagenomes with anvi'o A tutorial on how to use anvi-export-locus to target genomic regions of interest across genomes and/or metagenomic assemblies, and report sequences and/or anvi’o contigs databases for cut loci for downstream analyses.
genomics hands-on intermediate
Integrating AGNOSTOS gene categories into anvi'o projects A workflow to demonstrate how to import AGNOSTOS gene categories into anvi'o databases
metagenomics pangenomics hands-on advanced

Articles, workflows, opinions

Key insights into specific topics and can be useful to more advanced users and 'omics enthusiasts in general.

The history of metagenomics: An incomplete summary An incomplete history of ideas that shpaped integrated genomics and metagenomics to explore microbial fitness in habitats such as the human gut and the oceans.
metagenomics beginner